mRNA_H-elongata_contig81585.15826.1 (mRNA) Himanthalia elongata Himel1 dioecious

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NamemRNA_H-elongata_contig81585.15826.1
Unique NamemRNA_H-elongata_contig81585.15826.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A7S2ATC3_9STRA (Hypothetical protein n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2ATC3_9STRA)

HSP 1 Score: 84.7 bits (208), Expect = 4.740e-20
Identity = 40/46 (86.96%), Postives = 42/46 (91.30%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASK 138
            GVL+CLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNN    SAS+
Sbjct:   60 GVLACLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNVLYISASR 105
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A3R7D5H3_9STRA (Sm domain-containing protein n=1 Tax=Aphanomyces invadans TaxID=157072 RepID=A0A3R7D5H3_9STRA)

HSP 1 Score: 83.2 bits (204), Expect = 9.800e-20
Identity = 37/45 (82.22%), Postives = 42/45 (93.33%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSAS 135
            GVL+CLDG+MNIAMEQT+E+VNGQLKA+YGDCFIRGNNGK  S S
Sbjct:   30 GVLACLDGFMNIAMEQTQEFVNGQLKAQYGDCFIRGNNGKPSSLS 74
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A3Q0DVH0_CARSF (U6 snRNA-associated Sm-like protein LSm6 isoform X1 n=1 Tax=Carlito syrichta TaxID=1868482 RepID=A0A3Q0DVH0_CARSF)

HSP 1 Score: 83.6 bits (205), Expect = 1.680e-19
Identity = 39/53 (73.58%), Postives = 43/53 (81.13%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASKGQRVGAE 159
            GVL+CLDGYMNIA+EQTEEYVNGQLK KYGD FIRGNNG +   S  +R G E
Sbjct:   32 GVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNGNMCCTSAHRREGCE 84
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A836CMP0_9STRA (Sm domain-containing protein n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CMP0_9STRA)

HSP 1 Score: 83.6 bits (205), Expect = 1.720e-19
Identity = 37/38 (97.37%), Postives = 38/38 (100.00%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNN 114
            GVL+CLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNN
Sbjct:   70 GVLACLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNN 107
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: UPI0015D5FDA6 (U6 snRNA-associated Sm-like protein LSm6 isoform X1 n=1 Tax=Cygnus atratus TaxID=8868 RepID=UPI0015D5FDA6)

HSP 1 Score: 82.4 bits (202), Expect = 2.200e-19
Identity = 37/41 (90.24%), Postives = 39/41 (95.12%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKL 123
            GVL+CLDGYMNIA+EQTEEYVNGQLK KYGD FIRGNNGKL
Sbjct:   32 GVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNGKL 72
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A0U9HK22_KLENI (U6 snRNA-associated Sm-like protein LSm6 n=1 Tax=Klebsormidium nitens TaxID=105231 RepID=A0A0U9HK22_KLENI)

HSP 1 Score: 82.0 bits (201), Expect = 2.520e-19
Identity = 39/48 (81.25%), Postives = 40/48 (83.33%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASKGQ 144
            GVL+CLDGYMNIAMEQTEEYVNGQLK KYGDCFIRGNN    S  K Q
Sbjct:   32 GVLACLDGYMNIAMEQTEEYVNGQLKNKYGDCFIRGNNVLYISTQKSQ 79
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A7R9YDM9_9STRA (Hypothetical protein n=1 Tax=Pinguiococcus pyrenoidosus TaxID=172671 RepID=A0A7R9YDM9_9STRA)

HSP 1 Score: 82.4 bits (202), Expect = 3.040e-19
Identity = 38/46 (82.61%), Postives = 41/46 (89.13%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASK 138
            G+L+CLDG+MNIAMEQTEEYVNGQLKAKYGDCFIRGNN    SA K
Sbjct:   53 GILACLDGFMNIAMEQTEEYVNGQLKAKYGDCFIRGNNVLYISAQK 98
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: K0T4V9_THAOC (Sm domain-containing protein n=1 Tax=Thalassiosira oceanica TaxID=159749 RepID=K0T4V9_THAOC)

HSP 1 Score: 82.4 bits (202), Expect = 3.480e-19
Identity = 36/39 (92.31%), Postives = 39/39 (100.00%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNG 117
            GVL+CLDGYMNIAMEQTEEYV+GQLK+KYGDCFIRGNNG
Sbjct:   60 GVLACLDGYMNIAMEQTEEYVDGQLKSKYGDCFIRGNNG 98
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BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: K3WM85_GLOUD (Sm domain-containing protein n=8 Tax=Oomycota TaxID=4762 RepID=K3WM85_GLOUD)

HSP 1 Score: 81.6 bits (200), Expect = 3.780e-19
Identity = 38/46 (82.61%), Postives = 42/46 (91.30%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASK 138
            GVL+CLDG+MNIAMEQT+EYVNGQLKA+YGDCFIRGNN    SASK
Sbjct:   36 GVLACLDGFMNIAMEQTQEYVNGQLKAQYGDCFIRGNNVLYISASK 81
[Close]
BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Match: A0A2G5CS92_AQUCA (Sm domain-containing protein n=2 Tax=Ranunculaceae TaxID=3440 RepID=A0A2G5CS92_AQUCA)

HSP 1 Score: 82.0 bits (201), Expect = 3.990e-19
Identity = 40/53 (75.47%), Postives = 42/53 (79.25%), Query Frame = 1 
Query:    1 GVLSCLDGYMNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASKGQRVGAE 159
            G+L+CLDGYMNIAMEQTEEYVNGQLK KYGD FIRGNN    S SKG   G E
Sbjct:   42 GILACLDGYMNIAMEQTEEYVNGQLKNKYGDAFIRGNNVLYISTSKGTLGGGE 94
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig81585.15826.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A7S2ATC3_9STRA4.740e-2086.96Hypothetical protein n=1 Tax=Dictyocha speculum Ta... [more]
A0A3R7D5H3_9STRA9.800e-2082.22Sm domain-containing protein n=1 Tax=Aphanomyces i... [more]
A0A3Q0DVH0_CARSF1.680e-1973.58U6 snRNA-associated Sm-like protein LSm6 isoform X... [more]
A0A836CMP0_9STRA1.720e-1997.37Sm domain-containing protein n=1 Tax=Tribonema min... [more]
UPI0015D5FDA62.200e-1990.24U6 snRNA-associated Sm-like protein LSm6 isoform X... [more]
A0A0U9HK22_KLENI2.520e-1981.25U6 snRNA-associated Sm-like protein LSm6 n=1 Tax=K... [more]
A0A7R9YDM9_9STRA3.040e-1982.61Hypothetical protein n=1 Tax=Pinguiococcus pyrenoi... [more]
K0T4V9_THAOC3.480e-1992.31Sm domain-containing protein n=1 Tax=Thalassiosira... [more]
K3WM85_GLOUD3.780e-1982.61Sm domain-containing protein n=8 Tax=Oomycota TaxI... [more]
A0A2G5CS92_AQUCA3.990e-1975.47Sm domain-containing protein n=2 Tax=Ranunculaceae... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig81585contigH-elongata_contig81585:630..791 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
OGS1.0 of Himanthalia elongata Himel1 dioecious2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score65.1
Seed ortholog evalue9.7e-09
Seed eggNOG ortholog112098.XP_008604510.1
Preferred nameLSM6
KEGG rclassRC00004
KEGG koko:K12625,ko:K12769,ko:K13356
KEGG ReactionR09470
KEGG Pathwayko00073,ko03018,ko03040,ko04113,ko04146,ko04212,map00073,map03018,map03040,map04113,map04146,map04212
KEGG ModuleM00354,M00396,M00397
GOsGO:0000288,GO:0000291,GO:0000375,GO:0000377,GO:0000398,GO:0000932,GO:0000956,GO:0003674,GO:0003676,GO:0003723,GO:0003727,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005681,GO:0005688,GO:0005730,GO:0005732,GO:0005737,GO:0005829,GO:0006139,GO:0006364,GO:0006396,GO:0006397,GO:0006401,GO:0006402,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008187,GO:0008266,GO:0008380,GO:0009056,GO:0009057,GO:0009892,GO:0009987,GO:0010467,GO:0010468,GO:0010605,GO:0010629,GO:0016070,GO:0016071,GO:0016072,GO:0019222,GO:0019439,GO:0022613,GO:0030490,GO:0030532,GO:0031974,GO:0031981,GO:0032991,GO:0034470,GO:0034641,GO:0034655,GO:0034660,GO:0035770,GO:0036464,GO:0042254,GO:0042274,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043928,GO:0044085,GO:0044237,GO:0044238,GO:0044248,GO:0044260,GO:0044265,GO:0044270,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045292,GO:0046483,GO:0046540,GO:0046700,GO:0046982,GO:0046983,GO:0048519,GO:0050789,GO:0060255,GO:0065007,GO:0070013,GO:0071704,GO:0071840,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0120114,GO:0120115,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1990726,GO:1990904
EggNOG free text desc.mRNA splicing, via spliceosome
EggNOG OGsCOG1958@1,KOG1783@2759
EC1.2.1.84
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko01000,ko03000,ko03019,ko03041
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size162
Cds size135
Stop0
Start1
Relationships

The following UTR feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesTypePosition
1622931223.8209023-UTR-H-elongata_contig81585:629..6561622931223.8209023-UTR-H-elongata_contig81585:629..656Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig81585 630..656 +
1691679748.9356787-UTR-H-elongata_contig81585:629..6561691679748.9356787-UTR-H-elongata_contig81585:629..656Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig81585 630..656 +


The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesTypePosition
1622931223.841427-CDS-H-elongata_contig81585:656..7911622931223.841427-CDS-H-elongata_contig81585:656..791Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig81585 657..791 +
1691679748.947701-CDS-H-elongata_contig81585:656..7911691679748.947701-CDS-H-elongata_contig81585:656..791Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig81585 657..791 +


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig81585.15826.1prot_H-elongata_contig81585.15826.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig81585 657..791 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig81585.15826.1

>prot_H-elongata_contig81585.15826.1 ID=prot_H-elongata_contig81585.15826.1|Name=mRNA_H-elongata_contig81585.15826.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=45bp
MNIAMEQTEEYVNGQLKAKYGDCFIRGNNGKLGSASKGQRVGAEY
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mRNA from alignment at H-elongata_contig81585:630..791+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig81585.15826.1 ID=mRNA_H-elongata_contig81585.15826.1|Name=mRNA_H-elongata_contig81585.15826.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=162bp|location=Sequence derived from alignment at H-elongata_contig81585:630..791+ (Himanthalia elongata Himel1 dioecious)
GGGGTGTTGTCATGTTTAGACGGTTACATGAACATCGCCATGGAACAAAC
GGAGGAGTACGTGAACGGACAGCTGAAGGCCAAATACGGCGACTGCTTCA
TCCGAGGGAATAACGGTAAGCTTGGCTCTGCGTCCAAGGGTCAGCGGGTG
GGAGCAGAGTAC
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Coding sequence (CDS) from alignment at H-elongata_contig81585:630..791+

>mRNA_H-elongata_contig81585.15826.1 ID=mRNA_H-elongata_contig81585.15826.1|Name=mRNA_H-elongata_contig81585.15826.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=270bp|location=Sequence derived from alignment at H-elongata_contig81585:630..791+ (Himanthalia elongata Himel1 dioecious)
ATGAACATCGCCATGGAACAAACGGAGGAGTACGTGAACGGACAGCTGAA
GGCCAAATACGGCGACTGCTTCATCCGAGGGAATAACGGTAAGCTTGGCT
CTGCGTCCAAGGGTCAGCGGGTGGGAGCAGAGTACATGAACATCGCCATG
GAACAAACGGAGGAGTACGTGAACGGACAGCTGAAGGCCAAATACGGCGA
CTGCTTCATCCGAGGGAATAACGGTAAGCTTGGCTCTGCGTCCAAGGGTC
AGCGGGTGGGAGCAGAGTAC
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